12JS | pdb_000012js

Designed pentameric proton channel LQLL I13S

PDB DOI: https://doi.org/10.2210/pdb12JS/pdb

Classification: MEMBRANE PROTEIN
Organism(s): synthetic construct
Mutation(s): No

Deposited: 2026-04-08 Released: 2026-05-06
Deposition Author(s): Jacob, N.P., Kratochvil, H.T.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free:
0.278 (Depositor), 0.278 (DCC)
R-Value Work:
0.244 (Depositor), 0.247 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history.

Literature

Engineered Channel Asymmetry Extends Hydrogen-Bonding Networks for Proton Conduction

Jacob, N.P., Silverman, V.T., Prida, G., Kratochvil, H.T.

To be published.

Macromolecule Content

Total Structure Weight: 15.31 kDa
Atom Count: 1,028
Modeled Residue Count: 121
Deposited Residue Count: 130
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Proton channel LQLL I13S	A, B, C, D, E	26	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PEG Query on PEG Download:Ideal Coordinates CCD File SDF format, chain G [auth E] SDF format, chain F [auth C] MOL2 format, chain G [auth E] MOL2 format, chain F [auth C] mmCIF format, chain G [auth E] mmCIF format, chain F [auth C]	F [auth C], G [auth E]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain F [auth C] Focus chain G [auth E] Interactions & Density Focus chain F [auth C] Focus chain G [auth E]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free: 0.278 (Depositor), 0.278 (DCC)
R-Value Work: 0.244 (Depositor), 0.247 (DCC)

Space Group: P 4₂ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.645	α = 90
b = 54.645	β = 90
c = 80.668	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DIALS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-05-06

Deposition Author(s):

Kratochvil, H.T.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R00GM138753

Revision History (Full details and data files)

Version 1.0: 2026-05-06
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.